Towards a Cloud Native Big Data Platform using MiCADO

In the big data era, creating self-managing scalable platforms for running big data applications is a fundamental task. Such self-managing and self-healing platforms involve a proper reaction to hardware (e.g., cluster nodes) and software (e.g., big data tools) failures, besides a dynamic resizing of the allocated resources based on overload and underload situations and scaling policies. The distributed and stateful nature of big data platforms (e.g., Hadoop-based cluster) makes the management of these platforms a challenging task. This paper aims to design and implement a scalable cloud native Hadoop-based big data platform using MiCADO, an open-source, and a highly customisable multi-cloud orchestration and auto-scaling framework for Docker containers, orchestrated by Kubernetes. The proposed MiCADO-based big data platform automates the deployment and enables an automatic horizontal scaling (in and out) of the underlying cloud infrastructure. The empirical evaluation of the MiCADO-based big data platform demonstrates how easy, efficient, and fast it is to deploy and undeploy Hadoop clusters of different sizes. Additionally, it shows how the platform can automatically be scaled based on user-defined policies (such as CPU-based scaling)

The bacteria profiles of wounds in diabetic patients hospitalized in northern Kwazulu-Natal, South Africa

Diabetic wound infections still remain a health concern such that correct identification of bacteria is essential in monitoring the spread of the infections as well as in the administration of the correct treatment. This study therefore focuses on isolating and identifying bacteria present in diabetic wounds of hospitalized patients in northern KwaZulu-Natal and assessing their distribution.The wound specimen were collected and swabbed onto selective and differential media. The bacteria identities were presumptively ascertained through biochemical characterization (Gram-stain, catalase test, oxidase test and API) and then confirmed through 16S rDNA sequencing.A total of 42 isolates were recovered from 83% of the patients sampled from the three participating hospitals (X, Y, and Z). Gram-negative bacilli from Enterobacteriaceaewere predominant followed by Staphylococci spp and Enterococcus faecaliswith 43% polymicrobial cases from hospital Z and 29% from hospital X. Distribution of some opportunistic pathogens and nosocomially-acquired pathogens were also observed across the patients with five bacterial identities distributed among hospital X and Z. The adverse effects associated with the recovered bacteria in diabetic wounds pose a serious health concern and preventive measure should be taken.Keywords: Diabetes mellitus, wounds, bacteria, infectio

Science Gateways with Embedded Ontology-based E-learning Support

Science gateways are widely utilised in a range of scientific disciplines to provide user-friendly access to complex distributed computing infrastructures. The traditional approach in science gateway development is to concentrate on this simplified resource access and provide scientists with a graphical user interface to conduct their experiments and visualise the results. However, as user communities behind these gateways are growing and opening their doors to less experienced scientists or even to the general public as “citizen scientists”, there is an emerging need to extend these gateways with training and learning support capabilities. This paper describes a novel approach showing how science gateways can be extended with embedded e-learning support using an ontology-based learning environment called Knowledge Repository Exchange and Learning (KREL). The paper also presents a prototype implementation of a science gateway for analysing earthquake data and demonstrates how the KREL can extend this gateway with ontology-based embedded e-learning support

THE ANTIBACTERIAL ACTIVITIES OF SOME PLANT DERIVED TRITERPENES

Background: The increase in the prevalence of multi-drug resistant bacteria has necessitated the search for new antimicrobials from alternative sources such as traditional medicinal plants. Materials and Methods: The agar well diffusion method was employed to determine the susceptibilities of four plant derived triterpenes namely, 3β-hydroxylanosta-9, 24-dien-21-oic acid (RA5), and methyl-3β-hydroxylanosta-9, 24-dien-21oate (RA3), a mixture of oleanolic acid and betulinic acid (SF1) and a mixture of 3β-acetonyloleanolic acid and 3β-acetonylbetulinic acid (SF2), at a concentration of 10 mg/ml against seven Escherichia coli, one Bacillus cereus, five Enterococcus and nine Vibrio bacteria. The minimum inhibitory concentration (MIC) and minimum bactericidal concentration (MBC) were determined through the micro-broth dilution assay. The checkerboard method was used to determine the antibiotictriterpene interactions while the cytosolic lactate dehydrogenase test was used to determine the membrane damaging potentials of the triterpenes in comparison to 3% Triton X-100. Results: The triterpenes RA3, RA5, SF1 and SF2 had activities against 86.4%, 54.6%, 22.7% and 9.09% of the test bacteria respectively. SF1 had the lowest MIC values ranging 0.625-10 mg/ml with lower MIC values being noted against Gram negative bacteria in comparison to Gram positive bacteria; this trend was also noted among the activities of RA3 and RA5 although they had higher MIC value ranges of 1.25-10 mg/ml and 5- 10 mg/ml respectively. MBC studies proved the triterpenes to be mostly bacteriostatic. The interaction studies with ciprofloxacin were mainly ranging between indifference and antagonism. RA3 alone showed minimal membrane damaging potential with the levels of cytosolic lactate dehydrogenase released ranging from 1-36% in comparison to 3%Triton X-100 against E.coli (DSM-8695) and V. vulnificus (AL 042). Conclusion: The results hereby show the potential that the test triterpenes have as antibacterial agents, especially against the Gram negative bacteria namely E. coli and Vibrio bacteri

In vitro and in vivo antioxidant potentials of the methanolic crude extract from Inula glomerata Oliv. & Hiern (Asteraceae) and Salacia kraussii (Harv.) Harv (Celastraceae)

Reactive oxygen species are implicated in multiple pathological conditions including erectile dysfunction. This study evaluated the in vitro and in vivo antioxidant potential of the methanolic extracts of Inula glomerata and Salacia kraussii. The plant materials were pulverized and extracted with methanol. The phytochemical analysis, ability of the crude extracts to scavenge free radicals (ABTS, DPPH, NO.) in vitro as well as the total phenolic and flavonoid contents was investigated. In vivo, antioxidant potentials of the crude extracts (50/250 mg/kg body weight) were determined in an erectile dysfunction rat model. The phytochemical analysis revealed that both plants contain flavonoids, tannins, terpenoids, and alkaloids. The crude extracts at varying degree of efficiency, scavenged ABTS and DPPH radicals. The crude extracts at low concentrations (50 mg/kg b.w) significantly (p<0.05) diminished the level of malondialdehyde, augmented catalase activities and elevated glutathione levels. However, SOD activities were significantly boosted in a dose-dependent manner by the crude extracts. Therefore, I. glomerata and S. kraussii possess antioxidant properties, hence, can serve as a therapeutic modality in the treatment of oxidative stress-induced erectile dysfunction.https://blacpma.ms-editions.cl/index.php/blacpmapm2021BiochemistryGeneticsMicrobiology and Plant Patholog

Consensus evidence-based recommendations for treat-to-target management of immunoglobulin A vasculitis

IgA vasculitis (IgAV), formerly known as Henoch-Schönlein purpura, is the most common cause of systemic vasculitis in childhood. Given its potential life-threatening systemic complications, early and accurate diagnosis as well as management of IgAV represent a major challenge for health care professionals. This study was carried out to attain an evidence-based expert consensus on a treat-to-target management approach for IgAV using Delphi technique. The preliminary scientific committee identified a total of 16 key clinical questions according to the patient, intervention, comparison, and outcomes (PICO) approach. An evidence-based, systematic, literature review was conducted to compile evidence for the IgAV management. The core leadership team identified researchers and clinicians with expertise in IgAV management in Egypt upon which experts were gathered from different governorates and health centers across Egypt. Delphi process was implemented (two rounds) to reach a consensus. An online questionnaire was sent to expert panel (n = 26) who participated in the two rounds. After completing round 2, a total of 20 recommendation items, categorized into two sections were obtained. Agreement with the recommendations (rank 7–9) ranged from 91.7–100%. Consensus was reached (i.e. ⩾75% of respondents strongly agreed or agreed) on the wording of all the 20 clinical standards identified by the scientific committee. Algorithms for the diagnosis and management have been suggested. This was an expert, consensus recommendations for the diagnosis and treatment of IgAV and IgA vasculitic nephritis, based on best available evidence and expert opinion. The guideline presented a strategy of care with a pathway to achieve a state of remission as early as possible

Generation Y employees and their perceptions of work-life balance practices

The objective of this study is to identify the perceptions of Generation Y employees regarding work-life balance practices. As increasing numbers of Generation Y enter the workforce, questions regarding how they perceive work, family and self-related issues, challenges and coping strategies in balancing personal and professional commitments became issues of interests for employers. This study uses interviews to collect data from six informants in Generation Y and the data were analyzed through content analysis. The results indicate that Generation Y employees do indeed have issues and challenges with balancing work and family. However, unlike the older generation of employees, Generation Y employees perceive managing work-life balance only through segmentation or separation strategies. This particular finding indicates that if organizations want to attract and retain these employees they should adapt a strategy specifically designed to target this employee group

The role of emergent champions in policy implementation for decentralised drug-resistant tuberculosis care in South Africa.

OBJECTIVE: Champions are recognised as important to driving organisational change in healthcare quality improvement initiatives in high-income settings. In low-income and middle-income countries with a high disease burden and constrained human resources, their role is highly relevant yet understudied. Within a broader study on policy implementation for decentralised drug-resistant tuberculosis care in South Africa, we characterised the role, strategies and organisational context of emergent policy champions. DESIGN: Interviews with 34 healthcare workers in three South African provinces identified the presence of individuals who had a strong influence on driving policy implementation forward. Additional interviews were conducted with 13 participants who were either identified as champions in phase II or were healthcare workers in facilities in which the champions operated. Thematic analyses using a socio-ecological framework further explored their strategies and the factors enabling or obstructing their agency. RESULTS: All champions occupied senior managerial posts and were accorded legitimacy and authority by their communities. 'Disease-centred' champions had a high level of clinical expertise and placed emphasis on clinical governance and clinical outcomes, while 'patient-centred' champions promoted pathways of care that would optimise patients' recovery while minimising disruption in other spheres of their lives. Both types of champions displayed high levels of resourcefulness and flexibility to adapt strategies to the resource-constrained organisational context. CONCLUSION: Policymakers can learn from champions' experiences regarding barriers and enablers to implementation to adapt policy. Research is needed to understand what factors can promote the sustainability of champion-led policy implementation, and to explore best management practices to support their initiatives

"We had to manage what we had on hand, in whatever way we could": Adaptive responses in policy for decentralised drug-resistant tuberculosis care in South Africa

Karina Kielmann - ORCID: 0000-0001-5519-1658 https://orcid.org/0000-0001-5519-1658Replaced AM with VoR 2021-02-19.In 2011, the South African National TB Programme launched a policy of decentralized management of drug-resistant tuberculosis (DR-TB) in order to expand the capacity of facilities to treat patients with DR-TB, minimize delays to access care and improve patient outcomes. This policy directive was implemented to varying degrees within a rapidly evolving diagnostic and treatment landscape for DR-TB, placing new demands on already-stressed health systems. The variable readiness of district-level systems to implement the policy prompted questions not only about differences in health systems resources but also front-line actors’ capacity to implement change in resource-constrained facilities. Using a grounded theory approach, we analysed data from indepth interviews and small group discussions conducted between 2016 and 2018 with managers (n = 9), co-ordinators (n = 15), doctors (n = 7) and nurses (n = 18) providing DR-TB care. Data were collected over two phases in district-level decentralized sites of three South African provinces. While health systems readiness assessments conventionally map the availability of ‘hardware’, i.e. resources and skills to deliver an intervention, a notable absence of systems ‘hardware’ meant that systems ‘software’, i.e. health care workers (HCWs) agency, behaviours and interactions provided the basis of locally relevant strategies for decentralized DR-TB care. ‘Software readiness’ was manifest in four areas of DR-TB care: re-organization of service delivery, redressal of resource shortages, creation of treatment adherence support systems and extension of care parameters for vulnerable patients. These strategies demonstrate adaptive capacity and everyday resilience among HCW to withstand the demands of policy change and innovation in stressed systems. Our work suggests that a useful extension of health systems ‘readiness’ assessments would include definition and evaluation of HCW ‘software’ and adaptive capacities in the face of systems hardware gaps.The work presented in this paper was supported by the Joint Health Systems Research Initiative, jointly supported by the Department for International Development (DFID), the Economic and Social Research Council (ESRC), the Medical Research Council (MRC) and the Wellcome Trust (Grant# MR/N015924/1). This UK funded award is part of the EDCTP2 programme supported by the European Union. Ethical approval for the project was obtained through the University of Cape Town Human Research Ethics Committee (HREC REF 350/2016). HC is supported by a Wellcome Trust Fellowship. The authors wish to thank and acknowledge Dr. Norbert Ndjeka (SA NDOH), the provinces of the W Cape, E Cape, KZN for all their input and assistance.https://doi.org/10.1093/heapol/czaa14736pubpub